Query psy5732
Match_columns 454
No_of_seqs 55 out of 57
Neff 2.8
Searched_HMMs 46136
Date Fri Aug 16 16:36:23 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5732.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5732hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03185 CaKB: Calcium-activat 97.0 0.00019 4.1E-09 68.3 0.0 80 316-404 97-187 (201)
2 PF03185 CaKB: Calcium-activat 87.8 0.16 3.5E-06 48.8 0.0 85 15-110 10-99 (201)
3 smart00564 PQQ beta-propeller 39.4 23 0.0005 23.2 1.8 28 220-247 3-32 (33)
4 PF07255 Benyvirus_14KDa: Beny 36.0 21 0.00046 32.3 1.5 28 72-104 21-50 (123)
5 PF15102 TMEM154: TMEM154 prot 33.6 27 0.00058 32.9 1.8 28 381-408 54-84 (146)
6 PRK10040 hypothetical protein; 27.6 41 0.00089 26.9 1.7 26 171-197 20-45 (52)
7 PHA02954 EEV membrane glycopro 25.7 16 0.00035 37.5 -1.1 29 376-404 273-301 (317)
8 PF04677 CwfJ_C_1: Protein sim 21.3 82 0.0018 28.0 2.6 30 206-235 14-43 (121)
9 PF00918 Gastrin: Gastrin/chol 21.1 58 0.0012 29.1 1.6 16 24-39 3-18 (116)
10 PF15050 SCIMP: SCIMP protein 19.3 13 0.00028 34.4 -2.9 39 376-414 2-40 (133)
No 1
>PF03185 CaKB: Calcium-activated potassium channel, beta subunit; InterPro: IPR003930 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Ca2+-activated K+ channels are a diverse group of channels that are activated by an increase in intracellular Ca2+ concentration. They are found in the majority of nerve cells, where they modulate cell excitability and action potential. Three types of Ca2+-activated K+ channel have been characterised, termed small-conductance (SK), intermediate conductance (IK) and large conductance (BK) respectively []. BK channels (also referred to as maxi-K channels) are widely expressed in the body, being found in glandular tissue, smooth and skeletal muscle, as well as in neural tissues. They have been demonstrated to regulate arteriolar and airway diameter, and also neurotransmitter release. Each channel complex is thought to be composed of 2 types of subunit: the pore- forming (alpha) subunits and smaller accessory (beta) subunits. The beta subunit (which is thought to possess 2 TM domains) increases the Ca2+ sensitivity of the BK channel []. It does this by enhancing the time spent by the channel in burst-like open states. However, it has little effect on the durations of closed intervals between bursts, or on the numbers of open and closed states entered during gating []. ; GO: 0015269 calcium-activated potassium channel activity, 0006813 potassium ion transport, 0016020 membrane; PDB: 1JO6_A.
Probab=96.96 E-value=0.00019 Score=68.32 Aligned_cols=80 Identities=29% Similarity=0.546 Sum_probs=0.0
Q ss_pred eeEeeccEEEEeccCCcCCCh---------hhHHHHHHHhcCC-CCCCCCCccceeeeeCCCC-ceEEEeechhhhHHhh
Q psy5732 316 LLLANESRLLINLEGCVNTLR---------DECKEFLREFGKD-GTDHNARARFPCFYSEKIP-GTVIARFNLSETYREF 384 (454)
Q Consensus 316 Lti~nearLlINleGCGYpp~---------veCk~F~~~YG~d-G~d~na~arFPCYYSr~~p-~~VVaryd~~~t~~~l 384 (454)
+..+||..+..|-| |-|.|. .+=.+|.+.||.. | ..|||||+..++ +-||-+-.. +...+
T Consensus 97 ~L~~~E~~l~~n~k-CsY~P~C~~d~~~~~~~V~~~~~~~~~~~g------q~f~Cfy~P~~~~~~Vil~r~y--~~~~~ 167 (201)
T PF03185_consen 97 LLHHDEETLDSNPK-CSYIPKCHRDRQDNRAEVEDFQENFGQQNG------QTFPCFYDPDNQPEDVILRRKY--DPSVL 167 (201)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred EEEEchHhhccCCc-ceecCcccccHHHHHHHHHHHHHHhhhccC------cceeeeecCCCCcceEEEEEec--CHhHH
Confidence 44556666667777 999872 2234688888887 5 899999999974 566644333 23468
Q ss_pred hheeecchhhHHHHHhheee
Q psy5732 385 MIGFFVPCILLIVSCLTLIL 404 (454)
Q Consensus 385 i~a~~VP~vlFviS~i~L~~ 404 (454)
+++|.-|.++|+.+++...+
T Consensus 168 fhslfWP~l~lvgG~liv~m 187 (201)
T PF03185_consen 168 FHSLFWPSLMLVGGVLIVAM 187 (201)
T ss_dssp --------------------
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 99999999999876554433
No 2
>PF03185 CaKB: Calcium-activated potassium channel, beta subunit; InterPro: IPR003930 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Ca2+-activated K+ channels are a diverse group of channels that are activated by an increase in intracellular Ca2+ concentration. They are found in the majority of nerve cells, where they modulate cell excitability and action potential. Three types of Ca2+-activated K+ channel have been characterised, termed small-conductance (SK), intermediate conductance (IK) and large conductance (BK) respectively []. BK channels (also referred to as maxi-K channels) are widely expressed in the body, being found in glandular tissue, smooth and skeletal muscle, as well as in neural tissues. They have been demonstrated to regulate arteriolar and airway diameter, and also neurotransmitter release. Each channel complex is thought to be composed of 2 types of subunit: the pore- forming (alpha) subunits and smaller accessory (beta) subunits. The beta subunit (which is thought to possess 2 TM domains) increases the Ca2+ sensitivity of the BK channel []. It does this by enhancing the time spent by the channel in burst-like open states. However, it has little effect on the durations of closed intervals between bursts, or on the numbers of open and closed states entered during gating []. ; GO: 0015269 calcium-activated potassium channel activity, 0006813 potassium ion transport, 0016020 membrane; PDB: 1JO6_A.
Probab=87.79 E-value=0.16 Score=48.78 Aligned_cols=85 Identities=22% Similarity=0.532 Sum_probs=0.5
Q ss_pred CCCCcceeeeEeeehhhHHHHhhheeee-eeeEeechhhhhhcCcccCCceeEeecccccccCcccc----ccCCcccCC
Q psy5732 15 PPQDQKICGTICICQMTAVLSTVALVYL-TVAIYMPYMRAVQSGIDTSPVMCTTTRAVIIETCTWGS----CGEWCLSKT 89 (454)
Q Consensus 15 P~Qd~rICg~IC~cQlt~v~S~va~vyL-tvaiy~Ps~~a~~~~~~e~PvmC~T~~~~~~~nC~W~S----C~EwClsk~ 89 (454)
.-+|+.|+=. ++++.++|..+|+ ...+.-|++.... .++.-||+..+.-.+. |-+ ||--|-...
T Consensus 10 ~gedrai~lg-----~~m~~~svlm~~vlGitiv~P~l~s~~----~~et~Ctvl~s~i~~~--~v~Cs~~cg~~c~~~s 78 (201)
T PF03185_consen 10 AGEDRAILLG-----FAMMICSVLMLFVLGITIVKPYLKSLW----FEETNCTVLSSHIVGE--WVDCSFSCGSDCRGVS 78 (201)
T ss_dssp -S------------------------------------------------------------------------------
T ss_pred ccchHHHHHH-----HHHHHHHHHHHHHHHHhccchhhhhcc----cccceEEEEEEEeecc--cccccccCCCCCCCcC
Confidence 4567777644 3444444444444 3333338775433 5788999999964433 664 455554456
Q ss_pred CccccEEEEEEeecCceeeEe
Q psy5732 90 SGACAQIYVSLRHNGSNLLFV 110 (454)
Q Consensus 90 sg~C~qI~v~~r~NGs~l~l~ 110 (454)
.|.|-||+|++-..|..-+|+
T Consensus 79 ~yPCLqV~Vn~t~sg~~a~L~ 99 (201)
T PF03185_consen 79 KYPCLQVFVNYTHSGQTALLH 99 (201)
T ss_dssp ---------------------
T ss_pred CCCceEEEEEecCCCceEEEE
Confidence 789999999998877766665
No 3
>smart00564 PQQ beta-propeller repeat. Beta-propeller repeat occurring in enzymes with pyrrolo-quinoline quinone (PQQ) as cofactor, in Ire1p-like Ser/Thr kinases, and in prokaryotic dehydrogenases.
Probab=39.43 E-value=23 Score=23.17 Aligned_cols=28 Identities=32% Similarity=0.512 Sum_probs=19.4
Q ss_pred EeeCCeeeeecchhhh--hccccccccccc
Q psy5732 220 VLSGDRVYLSQCQKAV--LLNNTEQEIWTE 247 (454)
Q Consensus 220 l~~gD~v~~~~C~~av--~~~~~~~eiW~e 247 (454)
+..++.||.+.-++.+ .+.++++++|+-
T Consensus 3 ~~~~~~v~~~~~~g~l~a~d~~~G~~~W~~ 32 (33)
T smart00564 3 VLSDGTVYVGSTDGTLYALDAKTGEILWTY 32 (33)
T ss_pred EEECCEEEEEcCCCEEEEEEcccCcEEEEc
Confidence 3455577877766643 777788888864
No 4
>PF07255 Benyvirus_14KDa: Benyvirus 14KDa protein; InterPro: IPR009884 This family consists of several Benyvirus specific 14 kDa proteins of around 125 residues in length. Members of this family contain 9 conserved cysteine residues. The function of this family is unknown.
Probab=35.99 E-value=21 Score=32.32 Aligned_cols=28 Identities=36% Similarity=0.606 Sum_probs=20.5
Q ss_pred ccccCcccc--ccCCcccCCCccccEEEEEEeecC
Q psy5732 72 IIETCTWGS--CGEWCLSKTSGACAQIYVSLRHNG 104 (454)
Q Consensus 72 ~~~nC~W~S--C~EwClsk~sg~C~qI~v~~r~NG 104 (454)
..+.|+--| |+||||-. .+.||+||+-|
T Consensus 21 sv~~~~~FSiK~~~W~LFT-----~~V~V~YR~~~ 50 (123)
T PF07255_consen 21 SVEGCERFSIKFSEWKLFT-----TAVYVEYRQLG 50 (123)
T ss_pred ccCCeEEEEEecCCEEEEe-----eEEEEEEeccC
Confidence 345666544 99999644 58999999874
No 5
>PF15102 TMEM154: TMEM154 protein family
Probab=33.57 E-value=27 Score=32.85 Aligned_cols=28 Identities=25% Similarity=0.597 Sum_probs=19.1
Q ss_pred HHhhhheeecchhhH---HHHHhheeeEEEE
Q psy5732 381 YREFMIGFFVPCILL---IVSCLTLILCQRT 408 (454)
Q Consensus 381 ~~~li~a~~VP~vlF---viS~i~L~~~~~~ 408 (454)
-.+|++..+||.+|+ +++++.|++.+|.
T Consensus 54 q~efiLmIlIP~VLLvlLLl~vV~lv~~~kR 84 (146)
T PF15102_consen 54 QLEFILMILIPLVLLVLLLLSVVCLVIYYKR 84 (146)
T ss_pred CcceEEEEeHHHHHHHHHHHHHHHheeEEee
Confidence 345588899996666 4566677666654
No 6
>PRK10040 hypothetical protein; Provisional
Probab=27.62 E-value=41 Score=26.95 Aligned_cols=26 Identities=31% Similarity=0.611 Sum_probs=21.2
Q ss_pred ccCCCCCceeeeeccceeeecCceeee
Q psy5732 171 KCSGRRGKINCIAMHGLQNCVRGTCER 197 (454)
Q Consensus 171 kcs~~rgki~c~~lnG~f~C~~~~C~k 197 (454)
-|||++|-|.--+ .|.|.|+.|.=.+
T Consensus 20 PCSG~KGGis~C~-g~~FvCnDGSiS~ 45 (52)
T PRK10040 20 PCSGKKGGISHCT-GGKFVCNDGSISA 45 (52)
T ss_pred CCCCCCCCccccc-CCEEEeCCCchhh
Confidence 4999999998555 9999999886443
No 7
>PHA02954 EEV membrane glycoprotein; Provisional
Probab=25.69 E-value=16 Score=37.51 Aligned_cols=29 Identities=17% Similarity=0.498 Sum_probs=25.6
Q ss_pred chhhhHHhhhheeecchhhHHHHHhheee
Q psy5732 376 NLSETYREFMIGFFVPCILLIVSCLTLIL 404 (454)
Q Consensus 376 d~~~t~~~li~a~~VP~vlFviS~i~L~~ 404 (454)
+++.+|..+|+|+.|-.|+|+||+|+|..
T Consensus 273 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 301 (317)
T PHA02954 273 SLEATYHIIIVALTIMGVIFLISVIVLVC 301 (317)
T ss_pred hhhceeeEeeeehhhhHHHHhheeeEEEE
Confidence 46788889999999999999999998854
No 8
>PF04677 CwfJ_C_1: Protein similar to CwfJ C-terminus 1; InterPro: IPR006768 This group of sequences contain a conserved C-terminal domain which is found in the Schizosaccharomyces pombe (Fission yeast) protein Cwf19 (Q09909 from SWISSPROT) and its homologues. Cwf19 is part of the Cdc5p complex involved in mRNA splicing []. This domain is found in association with IPR006767 from INTERPRO, which is generally C-terminal and adjacent to this domain.
Probab=21.27 E-value=82 Score=27.97 Aligned_cols=30 Identities=30% Similarity=0.538 Sum_probs=25.4
Q ss_pred cccCCCCCccceEEEeeCCeeeeecchhhh
Q psy5732 206 RRCVDIPTRNKNVIVLSGDRVYLSQCQKAV 235 (454)
Q Consensus 206 R~C~dI~t~~~Nv~l~~gD~v~~~~C~~av 235 (454)
..|-+-|...|..||.-|+++||+--.+.+
T Consensus 14 ~fCl~n~~~~khliisiG~~~YLalpkg~L 43 (121)
T PF04677_consen 14 WFCLSNPNVEKHLIISIGDEVYLALPKGPL 43 (121)
T ss_pred CCccCCCCccceEEEEEcCcEEEEeCCCCc
Confidence 368888888999999999999998777654
No 9
>PF00918 Gastrin: Gastrin/cholecystokinin family; InterPro: IPR001651 Gastrin and cholecystokinin (CCK) are structurally and functionally related peptide hormones that function as hormonal regulators of various digestive processes and feeding behaviors. They are known to induce gastric secretion, stimulate pancreatic secretion, increase blood circulation and water secretion in the stomach and intestine, and stimulate smooth muscle contraction. Originally found in the gut, these hormones have since been shown to be present in various parts of the nervous system. Like many other active peptides they are synthesized as larger protein precursors that are enzymatically converted to their mature forms. They are found in several molecular forms due to tissue-specific post-translational processing. The biological activity of gastrin and CCK is associated with the last five C-terminal residues. One or two positions downstream, there is a conserved sulphated tyrosine residue. The amphibian caerulein skin peptide, the cockroach leukosulphakinin I and II (LSK) peptides, Drosophila melanogaster (Fruit fly) putative CCK-homologs Drosulphakinins I and II, cionin, a Gallus gallus (Chicken) gastrin/cholecystokinin-like peptide and cionin, a neuropeptide from the protochordate Ciona intestinalis belong to the same family.; GO: 0005179 hormone activity, 0005576 extracellular region
Probab=21.08 E-value=58 Score=29.09 Aligned_cols=16 Identities=56% Similarity=0.978 Sum_probs=13.4
Q ss_pred eEeeehhhHHHHhhhe
Q psy5732 24 TICICQMTAVLSTVAL 39 (454)
Q Consensus 24 ~IC~cQlt~v~S~va~ 39 (454)
.||+|-|++|||+.++
T Consensus 3 gicvcvLlavLs~~~l 18 (116)
T PF00918_consen 3 GICVCVLLAVLSTSCL 18 (116)
T ss_pred cEEeeHHHHHHHHhhc
Confidence 5899999999998654
No 10
>PF15050 SCIMP: SCIMP protein
Probab=19.27 E-value=13 Score=34.43 Aligned_cols=39 Identities=5% Similarity=0.177 Sum_probs=33.6
Q ss_pred chhhhHHhhhheeecchhhHHHHHhheeeEEEEeEEcCC
Q psy5732 376 NLSETYREFMIGFFVPCILLIVSCLTLILCQRTVEVGDD 414 (454)
Q Consensus 376 d~~~t~~~li~a~~VP~vlFviS~i~L~~~~~~V~VGdD 414 (454)
|||....-||+|++|=+|..++++|+.|+|.+..+-|-.
T Consensus 2 ~WWr~nFWiiLAVaII~vS~~lglIlyCvcR~~lRqGkk 40 (133)
T PF15050_consen 2 SWWRDNFWIILAVAIILVSVVLGLILYCVCRWQLRQGKK 40 (133)
T ss_pred chHHhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccc
Confidence 789888999999999999999999999999876666653
Done!